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CLIC1 chloride intracellular channel 1 [ Homo sapiens (human) ]

Gene ID: 1192, updated on 20-Jan-2019

Summary

Official Symbol
CLIC1provided by HGNC
Official Full Name
chloride intracellular channel 1provided by HGNC
Primary source
HGNC:HGNC:2062
See related
Ensembl:ENSG00000213719 MIM:602872
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
G6; CL1C1; NCC27
Summary
Chloride channels are a diverse group of proteins that regulate fundamental cellular processes including stabilization of cell membrane potential, transepithelial transport, maintenance of intracellular pH, and regulation of cell volume. Chloride intracellular channel 1 is a member of the p64 family; the protein localizes principally to the cell nucleus and exhibits both nuclear and plasma membrane chloride ion channel activity. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in placenta (RPKM 110.8), bone marrow (RPKM 106.5) and 25 other tissues See more
Orthologs

Genomic context

See CLIC1 in Genome Data Viewer
Location:
6p21.33
Exon count:
7
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 6 NC_000006.12 (31730581..31737318, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (31698358..31705095, complement)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene lymphocyte antigen 6 family member G6C Neighboring gene megakaryocyte and platelet inhibitory receptor G6b Neighboring gene dimethylarginine dimethylaminohydrolase 2 Neighboring gene uncharacterized LOC105375020 Neighboring gene MSH5-SAPCD1 readthrough (NMD candidate) Neighboring gene mutS homolog 5 Neighboring gene RNA, U6 small nuclear 850, pseudogene

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Tat tat Expression of HIV-1 Tat upregulates the abundance of chloride intracellular channel 1 (CLIC1) in the nucleoli of Jurkat T-cells PubMed
Vpr vpr A stable-isotope labeling by amino acids in cell culture coupled with mass spectrometry-based proteomics identifies downregulation of chloride intracellular channel 1 (CLIC1) expression by HIV-1 Vpr in Vpr transduced macrophages PubMed

Go to the HIV-1, Human Interaction Database

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
cadherin binding HDA PubMed 
chloride channel activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
chloride channel activity IDA
Inferred from Direct Assay
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
voltage-gated ion channel activity IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
chloride transmembrane transport IEA
Inferred from Electronic Annotation
more info
 
chloride transport IDA
Inferred from Direct Assay
more info
PubMed 
platelet aggregation HMP PubMed 
positive regulation of osteoblast differentiation IEA
Inferred from Electronic Annotation
more info
 
regulation of cell cycle IEA
Inferred from Electronic Annotation
more info
 
regulation of ion transmembrane transport IEA
Inferred from Electronic Annotation
more info
 
regulation of mitochondrial membrane potential IEA
Inferred from Electronic Annotation
more info
 
signal transduction TAS
Traceable Author Statement
more info
PubMed 
Component Evidence Code Pubs
blood microparticle HDA PubMed 
brush border TAS
Traceable Author Statement
more info
PubMed 
chloride channel complex IEA
Inferred from Electronic Annotation
more info
 
cytoplasm HDA PubMed 
cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
extracellular exosome HDA PubMed 
extracellular exosome IDA
Inferred from Direct Assay
more info
PubMed 
extracellular space HDA PubMed 
membrane HDA PubMed 
mitochondrion IEA
Inferred from Electronic Annotation
more info
 
nuclear envelope IDA
Inferred from Direct Assay
more info
PubMed 
nuclear membrane IEA
Inferred from Electronic Annotation
more info
 
nucleus HDA PubMed 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleus TAS
Traceable Author Statement
more info
PubMed 
perinuclear region of cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
plasma membrane IEA
Inferred from Electronic Annotation
more info
 
vesicle HDA PubMed 

General protein information

Preferred Names
chloride intracellular channel protein 1
Names
RNCC protein
chloride channel ABP
hRNCC
nuclear chloride ion channel 27
nuclear chloride ion channel protein
p64CLCP
regulatory nuclear chloride ion channel protein

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001287593.1NP_001274522.1  chloride intracellular channel protein 1

    See identical proteins and their annotated locations for NP_001274522.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript. Variants 1, 2 and 3 encode the same protein.
    Source sequence(s)
    BC064527
    Consensus CDS
    CCDS4719.1
    UniProtKB/Swiss-Prot
    O00299
    UniProtKB/TrEMBL
    Q5SRT3
    Related
    ENSP00000364935.2, ENST00000375780.6
    Conserved Domains (1) summary
    TIGR00862
    Location:6241
    O-ClC; intracellular chloride channel protein
  2. NM_001287594.1NP_001274523.1  chloride intracellular channel protein 1

    See identical proteins and their annotated locations for NP_001274523.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) has an alternate exon in the 5' UTR compared to variant 1. Variants 1, 2 and 3 encode the same protein.
    Source sequence(s)
    AI192421, AK223379, CB124154, CX783058, HY057217
    Consensus CDS
    CCDS4719.1
    UniProtKB/Swiss-Prot
    O00299
    UniProtKB/TrEMBL
    Q53FB0, Q5SRT3
    Related
    ENSP00000479808.1, ENST00000616760.1
    Conserved Domains (1) summary
    TIGR00862
    Location:6241
    O-ClC; intracellular chloride channel protein
  3. NM_001288.4NP_001279.2  chloride intracellular channel protein 1

    See identical proteins and their annotated locations for NP_001279.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) has an alternate exon in the 5' UTR compared to variant 1. Variants 1, 2 and 3 encode the same protein.
    Source sequence(s)
    BC064527, BM562536, X87689
    Consensus CDS
    CCDS4719.1
    UniProtKB/Swiss-Prot
    O00299
    UniProtKB/TrEMBL
    Q5SRT3
    Related
    ENSP00000364940.3, ENST00000375784.7
    Conserved Domains (1) summary
    TIGR00862
    Location:6241
    O-ClC; intracellular chloride channel protein

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000006.12 Reference GRCh38.p12 Primary Assembly

    Range
    31730581..31737318 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p12 ALT_REF_LOCI_2

Genomic

  1. NT_113891.3 Reference GRCh38.p12 ALT_REF_LOCI_2

    Range
    3207869..3214610 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p12 ALT_REF_LOCI_3

Genomic

  1. NT_167245.2 Reference GRCh38.p12 ALT_REF_LOCI_3

    Range
    2978342..2985081 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p12 ALT_REF_LOCI_4

Genomic

  1. NT_167246.2 Reference GRCh38.p12 ALT_REF_LOCI_4

    Range
    3035628..3042369 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p12 ALT_REF_LOCI_5

Genomic

  1. NT_167247.2 Reference GRCh38.p12 ALT_REF_LOCI_5

    Range
    3072456..3079197 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p12 ALT_REF_LOCI_6

Genomic

  1. NT_167248.2 Reference GRCh38.p12 ALT_REF_LOCI_6

    Range
    2986392..2993137 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p12 ALT_REF_LOCI_7

Genomic

  1. NT_167249.2 Reference GRCh38.p12 ALT_REF_LOCI_7

    Range
    3029877..3036620 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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